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mmu_circLrpprc_926
Basic information of circular RNA
PanCircBase ID:
mmu_circLrpprc_926
mm39_Chr. Position ID:
chr17|85017718|85034100|-
Gene name:
Lrpprc
Transcript:
ENSMUST00000112308.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
34,33,32,31,30,29,28
Exon/intron offsets:
0,244,2402,6336,12406,16012,16239
Genomic length:
16382
Exon/intron sizes in nt:
1,16,14,02,02,89,12,71,00,000
Flanking exon/introns:
chr17:85015590-85017718|chr17:85034100-85038572
Splice length:
926
Other database IDs:
circBase: hsa_circ_0054334, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_122318
Human Ortholog IDs:
Mature spliced Sequence:
AAATAAGCAGTGACTGGCAAAGAGCGGATGCTGCGTGGACCAAAATGCAAGAAGAGAACATTATCCCTCGAGAGCGGACACTGCGGCTCTTAGCCGAGATCTTGAAAACCAGCAACCAGGAAGTTCCTTTCGACGTTCCGGAGTTGTGGTTTGGAGATGACAGACCTTCCCTGAGTCCATCCTCACGCTCAGCAGGAGAGGACGTTACTGAGAAGACGTTGTTGTCTAACTGCAAACTAAAGAAGAGTAAAGATGCATATAATATCTTCCTTAAAGCCGAAAAGCAAAACGTTGTATTTAGCAGTGAAACTTATAGCACCTTGATAGGCTTGCTGCTGAGTAAGGACGACTTCACCCAAGCAATGCACGTGAAGGATTTCGCTGAGACCCACATCAAGGGCTTCACACTGAACGATGCTGCCAACAGCCTCCTCATCATAAGGCAAGTTAGGCGGGATTATTTGAAAGGGGCTCTGGCAACTCTGAGAGCAGCCTTGGATTTGAAGCAGGTTCCGTCCCAGATCGCCGTGACCCGCCTCATCCAGGCGTTGGCCTTGAAGGGTGATGTGGAAAGCATAGAGGCCATTCAGAGAATGGTGGCTGGACTTGACACGATTGGACTCTCAAAAATGGTTTTTATCAATAACATCGCTTTGGCCCAGATGAAGAATAATAAACTTGATGCTGCCATAGAAAACATTGAGCACCTGCTTGCTTCCGAGAACCAAGCCATAGAACCTCAGTACTTTGGCTTGTCGTATCTATTCAGAAAAGTGATCGAAGAGCAGATGGAACCAGCGCTAGAGAAGTTAAGCATCATGTCTGAGAGAATGGCGAATCAGTTTGCACTTTACAAGCCCGTCACTGATCTATTCCTGCAGCTTGTGGATTCAGGCAAGGTGGATGAGGCCAGAGCTCTCTTAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCACTTTACAAGCCCGTCA
60.18
TGTCCGCTCTCGAGGGATAA
60.11
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCACTTTACAAGCCCGTCAC
59.76
TGTCCGCTCTCGAGGGATAA
60.11
161
PCR template sequence:
GAGAATGGCGAATCAGTTTGCACTTTACAAGCCCGTCACTGATCTATTCCTGCAGCTTGTGGATTCAGGCAAGGTGGATGAGGCCAGAGCTCTCTTAGAGAAATAAGCAGTGACTGGCAAAGAGCGGATGCTGCGTGGACCAAAATGCAAGAAGAGAACATTATCCCTCGAGAGCGGACACTGCGGCTCTTAGCCGAGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-106a-5p(1), mmu-miR-103-3p(1), mmu-miR-26a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-106b-5p(1), mmu-miR-184-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-301b-3p(1), mmu-miR-370-3p(1), mmu-miR-107-3p(1), mmu-miR-301a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCTCTCTTAGAGAAATAAGCAGTGA
siRNA sets
CTGCTTATTTCTCTAAGAG, ACTGCTTATTTCTCTAAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLRPPRC_926_ORF_1
1.2472
0.290860312
0.990342042
888
ORF sequence:
ATGCAAGAAGAGAACATTATCCCTCGAGAGCGGACACTGCGGCTCTTAGCCGAGATCTTGAAAACCAGCAACCAGGAAGTTCCTTTCGACGTTCCGGAGTTGTGGTTTGGAGATGACAGACCTTCCCTGAGTCCATCCTCACGCTCAGCAGGAGAGGACGTTACTGAGAAGACGTTGTTGTCTAACTGCAAACTAAAGAAGAGTAAAGATGCATATAATATCTTCCTTAAAGCCGAAAAGCAAAACGTTGTATTTAGCAGTGAAACTTATAGCACCTTGATAGGCTTGCTGCTGAGTAAGGACGACTTCACCCAAGCAATGCACGTGAAGGATTTCGCTGAGACCCACATCAAGGGCTTCACACTGAACGATGCTGCCAACAGCCTCCTCATCATAAGGCAAGTTAGGCGGGATTATTTGAAAGGGGCTCTGGCAACTCTGAGAGCAGCCTTGGATTTGAAGCAGGTTCCGTCCCAGATCGCCGTGACCCGCCTCATCCAGGCGTTGGCCTTGAAGGGTGATGTGGAAAGCATAGAGGCCATTCAGAGAATGGTGGCTGGACTTGACACGATTGGACTCTCAAAAATGGTTTTTATCAATAACATCGCTTTGGCCCAGATGAAGAATAATAAACTTGATGCTGCCATAGAAAACATTGAGCACCTGCTTGCTTCCGAGAACCAAGCCATAGAACCTCAGTACTTTGGCTTGTCGTATCTATTCAGAAAAGTGATCGAAGAGCAGATGGAACCAGCGCTAGAGAAGTTAAGCATCATGTCTGAGAGAATGGCGAATCAGTTTGCACTTTACAAGCCCGTCACTGATCTATTCCTGCAGCTTGTGGATTCAGGCAAGGTGGATGAGGCCAGAGCTCTCTTAGAGAAATAA
Peptide sequence:
MQEENIIPRERTLRLLAEILKTSNQEVPFDVPELWFGDDRPSLSPSSRSAGEDVTEKTLLSNCKLKKSKDAYNIFLKAEKQNVVFSSETYSTLIGLLLSKDDFTQAMHVKDFAETHIKGFTLNDAANSLLIIRQVRRDYLKGALATLRAALDLKQVPSQIAVTRLIQALALKGDVESIEAIQRMVAGLDTIGLSKMVFINNIALAQMKNNKLDAAIENIEHLLASENQAIEPQYFGLSYLFRKVIEEQMEPALEKLSIMSERMANQFALYKPVTDLFLQLVDSGKVDEARALLEK
IRESfinder result
IRESfinder score
0.457481101
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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